Granaticins and their biosynthetic gene cluster from Streptomyces vietnamensis: Evidence of horizontal gene transfer

Antonie van Leeuwenhoek, International Journal of General and Molecular Microbiology

Volumn 100, Issue 4, 2011, Pages 607-617

  Deng, Ming Rong ^a   Guo, Jun ^a   Li, Xiang ^b   Zhu, Chun Hua ^a   Zhu, Hong Hui ^a  

^a GUANGDONG INSTITUTE OF MICROBIOLOGY   (China)

^b SOUTH CHINA SEA INSTITUTE OF OCEANOLOGY   (China)

Author keywords

Biosynthetic gene cluster; Evolution; Granaticin; Horizontal gene transfer; Streptomyces

Indexed keywords

ANTIINFECTIVE AGENT; DNA 16S; GRANATICIN; GRANATICIN B; UNCLASSIFIED DRUG;

ARTICLE; BACTERIAL GENE; BACTERIAL GENOME; CONTROLLED STUDY; DNA FLANKING REGION; DRUG STRUCTURE; GENE CLUSTER; GENE IDENTIFICATION; GENE TRANSFER; GRA GENE; HORIZONTAL GENE TRANSFER; INDEL MUTATION; MOLECULAR CLONING; MOLECULAR PHYLOGENY; NONHUMAN; NUCLEOTIDE SEQUENCE; OPEN READING FRAME; PRIORITY JOURNAL; SEQUENCE ANALYSIS; SEQUENCE HOMOLOGY; SPECIES DIFFERENCE; STREPTOMYCES; STREPTOMYCES VIETNEMENSIS; STREPTOMYCES VIOLACEUSNIGER; UNINDEXED SEQUENCE;

ANTI-BACTERIAL AGENTS; BACTERIAL PROTEINS; BASE SEQUENCE; BIOSYNTHETIC PATHWAYS; CLONING, MOLECULAR; GENE TRANSFER, HORIZONTAL; MOLECULAR SEQUENCE DATA; MULTIGENE FAMILY; NAPHTHOQUINONES; OPEN READING FRAMES; PHYLOGENY; STREPTOMYCES;

STREPTOMYCES; STREPTOMYCES VIOLACEORUBER;

EID: 80054118054     PISSN: 00036072     EISSN: 15729699     Source Type: Journal    
DOI: 10.1007/s10482-011-9615-9     Document Type: Article

References (43)

1. AG Agrawal RR Somani 2009 Farnesyl transferase inhibitor as anticancer agent Mini Rev Med Chem 9 638 652 19519490 10.2174/138955709788452702 1:CAS:528:DC%2BD1MXnslaqu70%3D
2. S Barcza M Brufani W Kellersc H Zähner 1966 Metabolic products from microorganisms-granaticin B Helv Chim Acta 49 6 1736 1740 5920453 10.1002/hlca.19660490603 1:CAS:528:DyaF2sXovFah
3. Běhal V (2002) Antibiotics. In: El-Gewely MR (ed) Biotechnology annual review, vol 8. Elsevier, Oxford, pp 227-265 (Pubitemid 41081522)
4. C Chang HG Floss P Soong CT Chang 1975 Identity of antitumor antibiotic litmomycin with granaticin A J Antibiot 28 2 156 166 1112767 1:CAS:528:DyaE2MXhsFeksrk%3D
5. R Corbaz L Ettlinger E Gäumann J Kalvoda W Keller-Schierlein F Kradolfer BK Manukian L Neipp V Prelog P Reusser H Zähner 1957 Products of metabolism of actinomycetes. IX granaticin Helv Chim Acta 40 5 1262 1269 10.1002/hlca.19570400518 1:CAS:528:DyaG1cXntlah
6. MR Deng J Guo HH Zhu 2010 Primary study on antibiotic and anticancer secondary metabolites and their potentially related genes from Streptomyces vietnamensis Nat Prod Res Dev 22 3 367 372 1:CAS:528:DC%2BC3cXhsF2nt77P
7. MR Deng J Guo HH Zhu 2011 Streptomyces vietnamensis GIMV4.0001: a granaticin-producing strain that can be readily genetically manipulated J Antibiot 64 4 345 347 21304531 10.1038/ja.2011.3 1:CAS:528:DC%2BC3MXltFyrurw%3D
8. S Donadio P Monciardini M Sosio 2007 Polyketide synthases and nonribosomal peptide synthetases: the emerging view from bacterial genomics Nat Prod Rep 24 5 1073 1109 17898898 10.1039/b514050c 1:CAS:528:DC%2BD2sXht1ygt7vP (Pubitemid 47493391)
9. S Egan P Wiener D Kallifidas EMH Wellington 1998 Transfer of streptomycin biosynthesis gene clusters within streptomycetes isolated from soil Appl Environ Microbiol 64 12 5061 5063 9835611 1:CAS:528:DyaK1cXnvF2hur4%3D (Pubitemid 28557888)
10. S Egan P Wiener D Kallifidas EMH Wellington 2001 Phylogeny of Streptomyces species and evidence for horizontal transfer of entire and partial antibiotic gene clusters Antonie Van Leeuwenhoek 79 2 127 133 11519998 10.1023/A:1010296220929 1:CAS:528:DC%2BD3MXmslWkt7w%3D (Pubitemid 32747122)
11. WF Fleck DG Strauss H Prauser 1980 Naphthoquinone antibiotics from Streptomyces lateritius I. Fermentation, isolation and characterization of granatomycins A, C, and D J Basic Microbiol (Z Allg Mikrobiol) 20 9 543 551 1:CAS:528:DyaL3MXhtl2qtQ%3D%3D (Pubitemid 11177876)
12. KA Frazer L Pachter A Poliakov EM Rubin I Dubchak 2004 VISTA: computational tools for comparative genomics Nucleic Acids Res 32 Web Server issue W273 W279 15215394 10.1093/nar/gkh458 1:CAS:528:DC%2BD2cXlvFKntL4%3D (Pubitemid 38997343)
13. A Ginolhac C Jarrin P Robe G Perriere T Vogel P Simonet R Nalin 2005 Type I polyketide synthases may have evolved through horizontal gene transfer J Mol Evol 60 6 716 725 15909225 10.1007/s00239-004-0161-1 1:CAS:528: DC%2BD2MXlsFGntL4%3D (Pubitemid 40896550)
14. A Huddleston N Cresswell M Neves J Beringer S Baumberg D Thomas E Wellington 1997 Molecular detection of streptomycin-producing streptomycetes in Brazilian soils Appl Environ Microbiol 63 4 1288 1297 9097426 1:CAS:528:DyaK2sXisVSqsro%3D (Pubitemid 27174830)
15. CR Hutchinson AL Colombo 1999 Genetic engineering of doxorubicin production in Streptomyces peucetius: a review J Ind Microbiol Biotechnol 23 1 647 652 10455495 10.1038/sj.jim.2900673 1:CAS:528:DyaK1MXlt1eiurY%3D (Pubitemid 29397145)
16. K Ichinose DJ Bedford MJ Bibb WP Revill DA Hopwood 1998 The granaticin biosynthetic gene cluster of Streptomyces violaceoruber Tü22: sequence analysis and expression in a heterologous host Chem Biol 5 11 647 659 9831526 10.1016/S1074-5521(98)90292-7 1:CAS:528:DyaK1cXotVWksrk%3D (Pubitemid 28525560)
17. J Ishikawa K Hotta 1999 FramePlot: a new implementation of the frame analysis for predicting protein-coding regions in bacterial DNA with a high G + C content FEMS Microbiol Lett 174 2 251 253 10339816 10.1111/j.1574-6968.1999. tb13576.x 1:CAS:528:DyaK1MXjtlOlu78%3D (Pubitemid 29217014)
18. S Iwasaki S Omura 2007 Search for protein farnesyl transferase inhibitors of microbial origin: our strategy and results as well as the results obtained by other groups J Antibiot 60 1 1 12 17390583 10.1038/ja.2007.1 1:CAS:528:DC%2BD2sXhslGrsLc%3D
19. U Keller M Lang I Crnovcic F Pfennig F Schauwecker 2010 The actinomycin biosynthetic gene cluster of Streptomyces chrysomallus: a genetic hall of mirrors for synthesis of a molecule with mirror symmetry J Bacteriol 192 10 2583 2595 20304989 10.1128/JB.01526-09 1:CAS:528:DC%2BC3cXms1enu7s%3D
20. W Keller-Schierlein M Brufani S Barcza 1968 Products of metabolism of microorganisms.66. Structure of granaticin and granaticin B.1. Spectroscopic properties and chemical degradation Helv Chim Acta 51 6 1257 1268 5680736 10.1002/hlca.19680510609 1:CAS:528:DyaF1cXkslOjtL4%3D
21. Kieser T, Bibb MJ, Buttner MJ, Chater KF, Hopwood DA (2000) Practical Streptomyces genetics, 2nd edn. John Innes Foundation, Norwich
22. N Leikoski DP Fewer K Sivonen 2009 Widespread occurrence and lateral transfer of the cyanobactin biosynthesis gene cluster in Cyanobacteria Appl Environ Microbiol 75 3 853 857 19047393 10.1128/AEM.02134-08 1:CAS:528:DC%2BD1MXhvVWmu7k%3D
23. F Lombo AF Brana C Mendez JA Salas 1999 The mithramycin gene cluster of Streptomyces argillaceus contains a positive regulatory gene and two repeated DNA sequences that are located at both ends of the cluster J Bacteriol 181 2 642 647 9882681 1:CAS:528:DyaK1MXmtlWhtA%3D%3D (Pubitemid 29045158)
24. JV Lopez 2004 Naturally mosaic operons for secondary metabolite biosynthesis: variability and putative horizontal transfer of discrete catalytic domains of the epothilone polyketide synthase locus Mol Genet Genomics 270 5 420 431 10.1007/s00438-003-0937-9 (Pubitemid 38085127)
25. AM Matter SB Hoot PD Anderson SS Neves YQ Cheng 2009 Valinomycin biosynthetic gene cluster in Streptomyces: conservation, ecology and evolution PLoS ONE 4 9 e7194 19787052 10.1371/journal.pone.0007194
26. H Ochman 2003 Neutral mutations and neutral substitutions in bacterial genomes Mol Biol Evol 20 12 2091 2096 12949125 10.1093/molbev/msg229 1:CAS:528:DC%2BD2cXnt12gug%3D%3D (Pubitemid 38057772)
27. A Ogilvie K Wiebauer W Kersten 1975 Inhibition of leucyl-transfer ribonucleic-acid synthetase in Bacillus subtilis by granaticin Biochem J 152 3 511 515 818999 1:CAS:528:DyaE28XhtFKhtLk%3D
28. A Ogilvie K Wiebauer W Kersten 1975 Stringent control of ribonucleic-acid synthesis in Bacillus subtilis treated with granaticin Biochem J 152 3 517 522 819000 1:CAS:528:DyaE28XhtFKhtLY%3D
29. JS Pyrek M Mordarski A Zamojski 1969 Identification of antibiotic WR 141 Arch Immunol Ther Exp 17 6 827 832 1:CAS:528:DyaE3cXnslerug%3D%3D
30. A Ratcliffe 2006 Inosine 5′-monophosphate dehydrogenase inhibitors for the treatment of autoimmune diseases Curr Opin Drug Discov Dev 9 5 595 605 1:CAS:528:DC%2BD28XpsFKntbc%3D (Pubitemid 44378828)
31. Ren X, Zheng ZH, Lu XH, Zhang XL, Zhu JT, Fan YL, Ding YB, Wang FS, Zhang H, He JG (2008) Studies on N01WB-352A, B, the IMPDH inhibitors. In: Proceedings of annual conference of Chinese Pharmaceutical Association and the eighth Chinese Pharmacist's week, Shijiazhuang, pp 539-544
32. Sambrook J, Russell DW (2001) Molecular cloning: a laboratory manual, 3rd edn. Cold Spring Harbor Laboratory, New York
33. I Schmitt HT Lumbsch 2009 Ancient horizontal gene transfer from bacteria enhances biosynthetic capabilities of fungi PLoS ONE 4 2 e4437 19212443 10.1371/journal.pone.0004437
34. K Tamura J Dudley M Nei S Kumar 2007 MEGA4: molecular evolutionary genetics analysis (MEGA) software version 4.0 Mol Biol Evol 24 8 1596 1599 17488738 10.1093/molbev/msm092 1:CAS:528:DC%2BD2sXpsVGrsL8%3D (Pubitemid 47236692)
35. J Tao P Schimmel 2000 Inhibitors of aminoacyl-tRNA synthetases as novel anti-infectives Expert Opin Investig Drugs 9 8 1767 1775 11060775 10.1517/13543784.9.8.1767 1:CAS:528:DC%2BD3cXls12kur0%3D (Pubitemid 30639327)
36. M Ventura C Canchaya A Tauch G Chandra GF Fitzgerald KF Chater D van Sinderen 2007 Genomics of actinobacteria: tracing the evolutionary history of an ancient phylum Microbiol Mol Biol Rev 71 3 495 548 17804669 10.1128/MMBR.00005-07 1:CAS:528:DC%2BD2sXhtFClu7jI (Pubitemid 47429283)
37. D Weaver N Karoonuthaisiri H-H Tsai C-H Huang M-L Ho S Gai KG Patel J Huang SN Cohen DA Hopwood CW Chen CM Kao 2004 Genome plasticity in Streptomyces: identification of 1 Mb TIRs in the S. coelicolor A3(2) chromosome Mol Microbiol 51 6 1535 1550 15009883 10.1111/j.1365-2958.2003.03920.x 1:CAS:528: DC%2BD2cXivFCrsro%3D (Pubitemid 38406530)
38. T Wenner V Roth G Fischer C Fourrier B Aigle B Decaris P Leblond 2003 End-to-end fusion of linear deleted chromosomes initiates a cycle of genome instability in Streptomyces ambofaciens Mol Microbiol 50 2 411 425 14617168 10.1046/j.1365-2958.2003.03698.x 1:CAS:528:DC%2BD3sXoslKmtr4%3D (Pubitemid 37297124)
39. P Wiener S Egan EMH Wellington 1998 Evidence for transfer of antibiotic-resistance genes in soil populations of streptomycetes Mol Ecol 7 9 1205 1216 9734076 10.1046/j.1365-294x.1998.00450.x 1:CAS:528:DyaK1cXmtFOisb0%3D (Pubitemid 28428493)
40. A Wietzorrek M Bibb 1997 A novel family of proteins that regulates antibiotic production in streptomycetes appears to contain an OmpR-like DNA-binding fold Mol Microbiol 25 6 1181 1184 9350875 10.1046/j.1365-2958.1997. 5421903.x 1:CAS:528:DyaK2sXmslWmurY%3D (Pubitemid 27410198)
41. ST Williams M Goodfellow G Alderson EMH Wellington PHA Sneath MJ Sackin 1983 Numerical classification of Streptomyces and related genera J Gen Microbiol 129 6 1743 1813 6631406 1:STN:280:DyaL2c%2FjsFSqsQ%3D%3D (Pubitemid 13044278)
42. Z Zhang M Gerstein 2003 Patterns of nucleotide substitution, insertion and deletion in the human genome inferred from pseudogenes Nucleic Acids Res 31 5338 5348 12954770 10.1093/nar/gkg745 1:CAS:528:DC%2BD3sXntVKgsrc%3D (Pubitemid 37441902)
43. HH Zhu J Guo Q Yao SZ Yang MR Deng LTB Phuong VT Hanh MJ Ryan 2007 Streptomyces vietnamensis sp. nov., a streptomycete with violet blue diffusible pigment isolated from soil in Vietnam Int J Syst Evol Microbiol 57 8 1770 1774 17684254 10.1099/ijs.0.64774-0 (Pubitemid 47308410)